If you use java 1.4 from java.sun.com and the correct XF86Config settings, your mousewheel will work. I'm using LimeWire v2.3.3 Pro.

Here's my XF86Config entry:

Section "InputDevice"
Identifier "USB Mouse"
Driver "mouse"
Option "Protocol" "IMPS/2"
Option "Device" "/dev/usbmouse0"
Option "ZAxisMapping" "4 5"
Option "Buttons" "5"
EndSection



Torsten